4processes that define a living thingOrganization and InformationNeed for an Energy SourceReproduction and Evolution

5Organization and InformationLiving things are born and living things die. Although true by definition, this underlies an essential property-they are organized.So long as an organism maintains a given level of organization, it is alive. When this organization breaks down, it dies.Living things impose organization on nonliving matter by growth, development, and reproduction.In death and decomposition, this organization breaks down.

6HomeostasisA critical aspect of life's organization is a constant internal environment, called homeostasis, which makes the complex biochemical machinery of life possible.

7InformationLiving things use a template to impose order on nonliving things and to maintain order within their own bodies.In all present-day living things, this template is DNA (many viruses use RNA, but are they living?.)This template makes proteins, which are responsible for our structure, function, and metabolism-it is copied every time living things reproduce.

8DNADNA is the prime substance of life itself (on this planet, at least), it is as close to the basis of life as we can get.DNA is the information template for life on earth. Without DNA, living organisms could not reproduce or function.

9Need for and Energy SourceAll living things require constant input of energy to survive.This is because life exists in a state of dynamic equilibrium.A dynamic equilibrium is an organized system that requires a constant input of energy to maintain itself.Without input of energy, the organization breaks down and death is imminent.

10Humans are HeterotrophsHumans, like other animals, are heterotrophs. We process energy that was originally captured by other living things.Unlike plants, we cannot fix energy from sunlight, nor can we fix energy by reducing hydrogen sulfide these organisms are autotrophs and chemoautotrophs respectively.)All of the energy we use to survive, and most of the nutrients, were taken from another organism.

11Reproduction and EvolutionAll living things are able to make copies of themselves.It is in this area that the ambiguous nature of viruses becomes apparent. A virus alone is inert. It does not use energy and cannot reproduce. In the presence of the right living cells, however, viruses can direct the production of million copies of themselves.

12On Earth, types of living things fall into (more or less) discrete categories called “species”The definition of a species, and our reasons for defining it that way, will come up several times during this course.Basically, species are groups of organisms that1-can interbreed and produce fertile offspring and/or2-share a set of traits in common that distinguishes them from other such groups and3-is an evolutionary lineage that persists, ancestor to descendant, over time

13Question: Which of the following are inherent properties of living things?InformationB) Sexual ReproductionC) Need for an Energy SourceD) RespirationE) A and C

15So, most of what is out there remains undescribed.There are approximately 2 million described species on Earth, estimates of the true number range from 5 to 30 million, with the number ranging as high as 100 million if prokaryote “species” are recognized.So, most of what is out there remains undescribed.The process of describing a species is time-consuming, and demands special skills which are in short supply.There is no central database of species, though several projects are underway to change this.There is also an attempt to create a central database of phylogenetic information.There are difficulties with the species concept; cryptic species, species named more than once, and polymorphic speciesAs a result, only a small fraction of species are named and described, some existing species have been named several times.

16Some taxa are known much better than others.For example, birds, mammals, flowering plants, and butterflies are well known,.Most species in these groups have been described and named.Most insect groups, such as the chalcidoids and beetles, are less well-known, but becoming much better-understood.Only a fraction of the insects have a name and a description.For some groups, including most microorganisms, we are only beginning to comprehend their true diversity.Above is a chalcidoid, named and described,Below are microbes from a Greenland glacier,no formal description yet

17This is what we have described so far, note the large numberGroup No. of described speciesProkaryotes 4,760Fungi ,983Algae ,900Bryophytes ,000GymnospermsAngiosperms ,000Protozoans ,800Sponges 5,000Corals and jellyfish 9,000Roundworms and earthworms 24,000Crustaceans ,000Insects ,000Other arthropods and minor invertebrates 132,461Mollusks ,000Echinoderms 6,100Fishes (teleosts) 19,056Amphibians 4,184Reptiles 6,300Birds 9,198Mammals 4,170Total species 1,435,662This is whatwe have describedso far,note the large numberof insects

18From E.O Wilson’s BiodiversityThis figure is fairly old, the numbers of described speciesIn each group have increased, but the proportions have remainedfairly similar.

19Clicker Question: Which of the following taxonomic groups has the LARGEST proportion of UNDESCRIBED species?Birds B) Butterflies C) MiceD) Beetles E) Bats

20The Old ClassificationThis “five kingdom” scheme of classification replaced the old animal kingdom vs. plant kingdom scheme in the 1970’s. It is an excellent grouping of organisms based on their characteristics, but it does not reflect evolution very well.

21The “Tree Within a Tree” PhenomenonVery often, groups of organisms appear to be similar because they share a great many “primitive” characteristics.This similarity is superficial, however, because very different organisms often possess the ancestral state for many characteristics, despite a great deal of evolution in different directions.Best way to define groups is based upon synapomorphies, new traits that arise in the common ancestor of a lineage and are inherited by the membersWhen organisms are classified this way, it becomes apparent that most of the organisms that seem familiar to us are a cluster of branches within a much larger tree.An important adaptation has enabled diversificationThis pattern is repeated many times in evolution.

22New ideas on the tree of lifeFrom paleos.comModern methods of sequencingDNA, and a modern approachto systematics allows a greaterunderstanding of the true“tree of life”The tree on the left, based uponribosomal RNA, which is veryevolutionarily conservativeendicates that there are three major“domains” of living things.The prokaryote archaea are closerTo eukaryotes than the bacteria.

23This is a reasonably current universal phylogeny of living things. From wikipedia.comThis is a reasonably current universal phylogeny of living things.As we know more, the picture changes.To surf the tree of life, go to

25Prokaryotes“Prokaryotes” are the most ancient, most abundant, and most metabolically diverse organisms.This term describes a state of organization (no nucleus) rather than a taxonomic group.Prokaryotes include the:BacteriaArchaea

27ProteobacteriaThe proteobacteria are a large and diverse group that includes photoautotrophs, chemoautotrophs, and heterotrophs.There is no taxonomic divide between “good” bacteria, those that are essential to the functioning of the biosphere, and “bad” bacteria, those that can kill us.Pathogenic bacteria occur within many different groups.On the basis of 16s RNA, they can be broken down into five basic groupsAlpha Beta Gamma Delta Epsilon

28Among the delta proteobacteria are the myxobacteria, interesting gliding bacteria that produce “fruiting bodies” under conditions of starvation.Myxobacteria live in the soil, and “glide” along solid surfaces via a polysaccharide slime.

29Among the alpha proteobacteria are the ancestors of mitochondria.Also included are Rhizobium species that live in the roots of plants,and the rickettsias, tiny pathogens that live within the cells of animalsbioinfo.bact.wisc.edu/.../Effects.html

30Spirochetes These are among the most distinctive bacteriathey move by a spiraling corkscrew motion.They can be free living or parasitic.Syphilis and Lyme’s disease are caused by spirochetesSpirochetes

31ArchaeaAlthough we know very little about them, the archaea are some of the most abundant, and important, organisms on the planet.The group is very ancient-some bear a striking resemblance to fossils dated at more than two billion years old and many exploit ecological niches that were probably more important billions of years ago.Though the majority live in ordinary habitats, the group includes many exptremophiles.These include;methanogens-live in anerobic conditions and break down methaneextreme thermophiles-live in incredibly hot environmentsextreme halophiles-live in extremely salty environments

33EukaryotesEukaryotes are much more diverse than was previously thought.Modern studies of eukaryote taxonomy indicate there are probably between 11 and 20 eukaryote kingdoms, rather than simply plants, animals, fungi, and protists. These kingdoms include many groups formerly classed simply as “protists”, such as Diplomonads and Parabasalids.

35Some Kingdoms of EukaryaEuglenoidsAlveolatesDiscicristates“Ameboid” protistsOphistokontsThis includes us, by the way

36“Protists”“Protists” are simply eukaryotes that are unicellular for most of their life cycle.There are many groups of distantly related protists, which are now thought of as “kingdoms” in their own right.Several groups have independently acquired photosynthesis, and become “algae”, others have evolved multicellularity.One group of multicellular protists evolved into animals.Another lineage evolved into fungi.There are several multicellular lineages, such as slime molds, that neither plant nor animal nor fungi.

37FungiFungi are a kingdom of organisms that includes decomposers, parasites, and mutualisms.There are four major groups;ChrytridomycotsZygomycotsAscomycotsBasidiomycots

39ViridiplantaeThis group includes the green plants and the basal “bush” from which they originated. They have chlorophyls a and b, as well as certain other distinguishing characteristics.Green Algae-ChlorophytesCharophytesPlants

41AnimalsAnimals are a true lineage of multicellular organisms evolved from one line of protists (probably resembling a group called the choanocytes).They have evolved many different body plans, each of which represents a phylum.There are about 30 present-day animal phyla, there were probably more in the distant past.

42Organisms CreateHabitats for Other Organisms.Many individuals ofa single speciesare called a biologicalpopulationPopulations of organisms tendto assemble intobiological communities

43Biodiversity Genetic Diversity within Populations Number of SpeciesDiversity of Populations Within SpeciesNumber of Speciesin a given habitat (alpha diversity)accounting for the diversity of habitats, and the change in species from one habitat to the next (beta)total number of species (gamma)Communities and Ecosystems

44Question: Which of the following organisms is NOT a eukaryote?A spirochete (Treponema sp.)Euglena sp.A frog (Hyla sp.)A dandelion (Taxacum sp.)All of the above are eukaryotes.

45Ecology and EvolutionThe sciences of ecology and evolutionary biology are often taught together, and at many universities, the two sciences are part of a single academic department.This is because the mechanisms that drive evolution are fundamentally ecological, and the participants in ecological interactions are products of evolution.The two subject areas interrelate so extensively that some areas of research, such as life history evolution, biogeography, coevolution, and macroevolution, are inextricably entwined in both sciences.They provide an answer to the question of why there are so many species are out there, as well as an answer to the question of why they take the forms they do.

46Example: Pollination Syndromes in FlowersNaturalists have long observed that flowering plants, in a wide variety of taxa convergently evolve characteristics which match one of several “pollination syndromes.”The same pollination syndromes evolve in widely disparate types of plants. Likewise, widely disparate types of pollinators will evolve to exploit these syndromes.These “syndromes” are discrete sets of floral, nectar, and pollen characteristics that match the sensory abilities, metabolism, and biology of their pollinators, and act to ensure efficient pollination by manipulating the behavior of the pollinator.Pollinators evolve in response to these floral characteristics, the result being a coevolutionary interaction that intensifies the relationship.Example; A flower evolves a long corolla to ensure that hawkmoth visitors must reach deeply into a flower in order to reach the nectar “reward” provided by the flower, thus placing their faces in the appropriate location to receive pollen.The hawkmoths respond by evolving longer tongues, to enable them to more easily reach the nectaries of the flowers.This, in turn, places selective pressure on the flowers, and intensifies the relationship. The longer nectary, in turn, makes it nearly impossible for long-tongued bees to visit the flowers, and drives the system toward an obligate mutualism, rather than a looser, facultative mutualism.

47Charles Darwin was fascinated by pollinators.Upon examination of a Madagascar Star orchid, (Angraecum sesquipedale), which has a nectar tube over ten inches long, he famously predicted that there must be a hawkmoth with a tongue ten inches long to pollinate it.At the time, only the orchid had been discovered.40 years later, the moth was discovered, Xanthophan morgani praedicta, now called Darwin’s hawkmoth.In this particular scenario, part of the selective pressure driving the system is that the moths are safer from predatory spiders, but less effective as pollinators, if they never get too close to the flowers as they feed.

48In addition to the evolutionary consequences of these syndromes, they have ecological aspects as well.Under some circumstances, flowers effectively “compete” for pollinators. Flowers that are more conspicuous, and offer greater rewards, get more pollinators, but since these syndromes restrict the types of pollinators that can visit flowers, they restrict the scope of competition.Pollinators very often compete for nectar, and for pollen. Specialist pollinators that visit only one type of flower are sometimes protected from interspecific competition (sometimes not, pollinator specialization does not imply that the flower can only receive one type of visitor), but at the cost of extreme ecological specialization.This specialization causes the pollinator to evolve behavior and life history to match the appearance of the flowers they pollinate.Other pollinators are “generalists”, able to visit a wide variety of flowers within their own pollination syndrome.

49For instance, the squash bee, Peponapis pruinosa feeds on the nectar and pollen of squash, exclusively. Though other bees visit squash, it is the most effective pollinator. Males hide in squash flowers day and night, waiting for females to mate with in the early mornings as they forage for pollen. The abundance of this pollinator makes squash and pumpkins easy to cultivate, even though most gardeners do not know the squash bee exists. Squash bees time their emergence to late summer.

50The most common pollination syndromes:Flies and generalists-open flowers, easy to reach pollen, accessible nectaries. Large amounts of pollen because most of the visitors are after pollen. Usually early spring.Long-tongued bees-moderately long corollas, flowers are white, blue, yellow, infrared, small amounts of sucrose-concentrated nectar, sometimes a “landing pad” for bees, and sometimes petals that must be pushed apart for the bee to reach the nectar. Scented flowers, open in daytime. Sticky pollen that bees can easily collect and transport, nectar guides.Short-tongued bees-white, yellow, infrared flowers, short corollas with easily available pollen, no special tricks with petals, but usually asymmetric. Scented flowers open in daytime. Sticky pollen. Sucrose-dominated nectar in variable amounts.Bumblebees, Amigillia bees-as with long-tongued bee flowers, but bee must hang upside and buzz to release pollen.Hawkmoths-very long corollas that effectively force the moth to push its face into the stamens in order to reach reward (moths are not after pollen, so they must be tricked into transporting it), white flowers that are heavily scented and open at night, small amounts of concentrated nectar.Butterflies-as above, but flowers run more to the pink or lavender and have a landing platform.Hummingbirds-red flowers (only vertebrates see that color well) with very long corollas and large amounts of dilute nectar, flowers open in daytime, and bird is forced to push face into stamens in order to feed. No scent.Bats-large amounts of dusty pollen that will stick to mammal hairs, very big flowers that bats can reach into with their faces, open at night,Beetles-flowers smell like carrion and offer large amounts of pollen